miRNA display CGI


Results 1 - 20 of 106 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
7011 3' -54 NC_001875.2 + 1763 0.76 0.445247
Target:  5'- gUCGGCGGAugugaccACGAGCAuGCCGCCGc--- -3'
miRNA:   3'- -GGUCGCUU-------UGCUCGU-CGGCGGCaauu -5'
7011 3' -54 NC_001875.2 + 1811 0.76 0.445247
Target:  5'- gUCGGCGGAugugaccACGAGCAuGCCGCCGc--- -3'
miRNA:   3'- -GGUCGCUU-------UGCUCGU-CGGCGGCaauu -5'
7011 3' -54 NC_001875.2 + 2711 0.69 0.800352
Target:  5'- uUCGGCGuGAAUguucaugauaGGGCAGCCGCCGc--- -3'
miRNA:   3'- -GGUCGC-UUUG----------CUCGUCGGCGGCaauu -5'
7011 3' -54 NC_001875.2 + 4566 0.73 0.607295
Target:  5'- gCCAGCaacGCGAGCAGCCGCa----- -3'
miRNA:   3'- -GGUCGcuuUGCUCGUCGGCGgcaauu -5'
7011 3' -54 NC_001875.2 + 5510 0.73 0.586306
Target:  5'- aCCGGCGcacGCGcGCaguuuacgccGGCCGCCGUUGAg -3'
miRNA:   3'- -GGUCGCuu-UGCuCG----------UCGGCGGCAAUU- -5'
7011 3' -54 NC_001875.2 + 7250 0.66 0.925184
Target:  5'- gCAGCGGGuuuaacuACGAGCAggagcaaacgguguGCCGCCa---- -3'
miRNA:   3'- gGUCGCUU-------UGCUCGU--------------CGGCGGcaauu -5'
7011 3' -54 NC_001875.2 + 7564 0.67 0.890112
Target:  5'- gCCGGCG-GACGAGCGGCacccCUGUUu- -3'
miRNA:   3'- -GGUCGCuUUGCUCGUCGgc--GGCAAuu -5'
7011 3' -54 NC_001875.2 + 8255 0.67 0.903534
Target:  5'- gCCGGCGAAucuUGuGC--CCGCCGUUGg -3'
miRNA:   3'- -GGUCGCUUu--GCuCGucGGCGGCAAUu -5'
7011 3' -54 NC_001875.2 + 11065 0.67 0.890112
Target:  5'- aCCAGCGuuuuggcGACGAGCAcuUCGCgGUUGGa -3'
miRNA:   3'- -GGUCGCu------UUGCUCGUc-GGCGgCAAUU- -5'
7011 3' -54 NC_001875.2 + 11162 0.68 0.852436
Target:  5'- gCCGGuCGAuGGCGcacAGCAGCgCGCCGUc-- -3'
miRNA:   3'- -GGUC-GCU-UUGC---UCGUCG-GCGGCAauu -5'
7011 3' -54 NC_001875.2 + 11915 0.67 0.909875
Target:  5'- gCGGCGAGcagguguuuuGCGcGCGGCgCGCCGa--- -3'
miRNA:   3'- gGUCGCUU----------UGCuCGUCG-GCGGCaauu -5'
7011 3' -54 NC_001875.2 + 12842 0.67 0.909252
Target:  5'- cCCGGCGGcgcCGGcuagcacGCAGCCGUgGUUGGu -3'
miRNA:   3'- -GGUCGCUuu-GCU-------CGUCGGCGgCAAUU- -5'
7011 3' -54 NC_001875.2 + 13909 0.68 0.844239
Target:  5'- aCGGCGucuacuGCGAGCgGGCCGUCGc--- -3'
miRNA:   3'- gGUCGCuu----UGCUCG-UCGGCGGCaauu -5'
7011 3' -54 NC_001875.2 + 14521 0.66 0.927387
Target:  5'- gUCGGgGGAacuugGCGGGCAcGCCGCUuguGUUGAa -3'
miRNA:   3'- -GGUCgCUU-----UGCUCGU-CGGCGG---CAAUU- -5'
7011 3' -54 NC_001875.2 + 17038 0.67 0.888015
Target:  5'- uUguGCGGGagccgcgcaacaacGCGAGCAGCUGCCc---- -3'
miRNA:   3'- -GguCGCUU--------------UGCUCGUCGGCGGcaauu -5'
7011 3' -54 NC_001875.2 + 17562 0.7 0.772012
Target:  5'- aCCGuUGgcGCGAGCGGCUGCCGc--- -3'
miRNA:   3'- -GGUcGCuuUGCUCGUCGGCGGCaauu -5'
7011 3' -54 NC_001875.2 + 21330 0.66 0.932197
Target:  5'- --cGCGGggcccgccuuguuGACGAGCAGC-GCCGUg-- -3'
miRNA:   3'- gguCGCU-------------UUGCUCGUCGgCGGCAauu -5'
7011 3' -54 NC_001875.2 + 21658 0.72 0.670462
Target:  5'- gCCAGCGcGGACGAGCGcagugcgacGCCGCCc---- -3'
miRNA:   3'- -GGUCGC-UUUGCUCGU---------CGGCGGcaauu -5'
7011 3' -54 NC_001875.2 + 23175 0.69 0.800352
Target:  5'- aCGGCGGcuGCGGGCA-CgGCCGUUGg -3'
miRNA:   3'- gGUCGCUu-UGCUCGUcGgCGGCAAUu -5'
7011 3' -54 NC_001875.2 + 23259 0.66 0.932718
Target:  5'- aCAGCGA--CGGGCAGCgcagCGCCa---- -3'
miRNA:   3'- gGUCGCUuuGCUCGUCG----GCGGcaauu -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.